Status
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Gene information
General information
TC001386 Gene

The sequence from the iB fragment is matched against the genes from the official gene set. The matche(s) is/are visualizied in a genome browser.

NW_015450585.1: 459..2703
Sequence information
Transcripts / Proteins (1) Get mRNA sequence
Get CDS sequence
Get protein sequence
Ortholog information (from OrthoDB)

The information about the homolog genes in Drosophila is provided by OrthoDB http://www.orthodb.org/. The homologs are sorted according to their similarity score. For an orthology statement additional analysis are required.
The data basis for the orthologs is OrthoDB v9 containing OGS3 for Tribolium castaneum and 2015_04 (r6.07) for Drosophila melanogaster.

Closest fly homologs
      		TC001386
      Gene ontology

      GO terms for Tribolium

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      There are no GO terms for Tribolium at the moment. You can help the community by providing some GO terms for this gene.


      GO terms for the homologous Drosophila genes

      Assign a GO term to this Tribolium gene by filling in the fields. Repeat to add several GO terms. Search AmiGO for the correct GO ID. Use only the most specific term - use "graph views" to browse related terms ("child terms" are more specific; the more general "parent" terms will be automatically linked). Only information based on Tribolium data should be entered - do not define terms just based on Drosophila knowledge. We will review this information and submit the annotation to the Gene Ontology consortium.


      Gene
      {{ goGene }}
      The Tribolium gene the GO term is assigned to.
      GO ID *
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      The ID of the GO term you assign to the gene. Please enter only the ID of the GO term with proceeding 'GO:'. This information is mandatory.
      Evidence
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      The evidence code describes with which method the function or location, expressed by the GO term, was show for this gene. Please refer to this page for a definition of the evidence code and a decision tree.
      Reference *
      {{ blurReferenceResult }}
      The reference where the function or location is described for the gene. Please enter a PubMed ID. This information is mandatory.
      Quotation
      If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
      Name
      You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
      Email
      We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
      Publish name
      If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_07723

      Attention! iBeetle is a first pass screen. Hence, the documented phenotypes need to be confirmed by independent experiments using non-overlapping dsRNA fragments! Phenotypes with a penetrance > 50% are frequently reproduced. See Schmitt-Engel et al. 2015 for details on reproducibility.

      iB sequence
      Phenotype after pupal injection
      Usually 10 injected animals

      Pupal injection procedure

      Day 0: 10 female pupae of the pBA19 strain (muscle enhancer trap line) were injected with dsRNA.

      3 days post injection (dpi): Hatch control: Pupal and adult lethality as well as metamorphosis defects (molting, eclosion) were documented. For mating, 4 males of the black strain were added.

      9 dpi: First egg-lay was collected and incubated for cuticle analysis. Adult lethality and egg production (reduced/ no egg-lay) was documented.

      11 dpi: Second egg-lay was collected and incubated for embryonic muscle analysis. Adult lethality and egg production (reduced/ no egg-lay) were documented.

      Note: The adult morphology was not analyzed systematically at 3/9/11 dpi. Only obvious phenotypes, visible without magnification, have been annotated.

      13 dpi: Egg productivity and Ovary analysis
      The percentage of hatched larvae was documented and not hatched larvae/ eggs were embedded for cuticle analysis (15 dpi). In case of a reduction of egg production, 4 injected females were dissected to analyze the gross morphology of the ovaries.

      14 dpi: Analysis of embryonic musculature and early embryonic development
      Offspring of the injected females (hatched and not hatched larvae/ eggs) were analysed for embryonic lethality and muscle defects.

      15 dpi: Analysis of larval instar 1 cuticle
      Offspring of injected females were analysed and cuticle phenotypes were annotated.

      22 dpi: Stink gland analysis
      Documentation of defects in abdominal and thoracic stink glands (colour, size, content) of the injected femals.

      Terms used in the pupal injection procedure

      larval pantagmatic defects
      At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
      empty eggs
      Just empty shells are visible, no cuticle has been developed.
      strong defects
      L1 cuticle larvae which show severe defects. These strong defects are subdivided into three categories
      strongly fragmented (cuticle crumbs)
      No segments or appendages are identifiable, only residues of cuticle and bristles can be identified.
      cuticle remnants (with unidentifiable segments)
      Segments or parts of appendages are recognizable, but identity is not clear.
      cuticle remnants (with some identifiable segments)
      At least one segment or appendage is clearly regonizable.
      number of eggs on slide
      affected embryos usually (not always) do not hatch. Only the not hatched were used for cuticle analysis.
      For the embryonic muscle analysis the hatched as well as the not hatched were analysed.
      total number of affected eggs/embryos/larvae
      Summary of all different phenotypes/ phenotypic series which were annotated.
      inside-out
      The L1 larva shows a partial or complete inversion., e.g. bristles, appendages or parts of the abdominal segments are inverted into the interior of the cuticle.
      starved
      Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
      eclosion not fulfilled
      The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
      Please see the help page for more information
      Metamorphosis and survival

      Lethality 11 days after pupal injection: 0.0% (includes death as pupa, adult)

      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: < 20
      Phenotype after larval injection
      Usually 10 injected animals

      Larval injection procedure

      Day 0: 10 female L5-6 larvae of the D17Xhom strain (females express RFP in the eyes and in the CNS; pupae express GFP in the thorax) were injected with dsRNA.

      11 days post injection (dpi): Pupal morphology Documentation of larval/ pupal death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of pupal head and appendages, pupal thorax, pupal thoracic musculature, pupal legs, pupal wings, pupal abdomen and pupal genital lobes.

      16 dpi: Adult morphology Documentation of larval/ pupal and adult death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of adult head and appendages, adult thorax, adult elytra and hindwings, adult legs and cuticle properties. For mating 4 males of the black strain were added.

      19 dpi: Sieving and egg-lay Documentation of adult lethality and enduring metamorphosis defects.

      22 dpi: Ovary analysis (Fertility) In case of a reduction of egg production 4 females were dissected and the gross morphology of the ovaries were analysed.

      41 dpi: Fertility and stink gland analysis Documentation of defects in abdominal and thoracic stink glands development (colour, size, content) of the injected females. Check for fertility of injected larvae (no or decreased offspring).

      Terms used in the larval injection procedure

      pupal/ adult pantagmatic defects
      At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
      pupal molt not fulfilled
      The hatching from the larva to the pupa is interrupted. Either it dies as prepupa or the phenotype shows larval as well as pupal features.
      eclosion not fulfilled
      The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
      starved
      Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
      Metamorphosis and survival

      Lethalities 11 days after larval injection: % (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC001386 RA
        MPDNPPDFN AAVQVERVT VKPPPFWKG DPKLWFIQL 
EAQFNLGKI TSDTTKYHY VASAIDTSV LQQIADFVT 
NPPVVNQYE GIKQRLIST FSDSQERQL RKLLSEMDL 
GDKKPSQLL NEMKRLGDS AVSDELLKT LWLQRLPTH 
VQSVLATSS DPIQNLAQM ADKIVEIQH MSSVCTVAT 
PTEDMSAAI LQLTEEVAA LKAAYNTEI KPRRSRSRP 
QTPDRSSRD SCWYHRTFG NKAKKCITP CNFNKSENS 
TPRHRRLTI TDPTTGISF LIDSGSDIS IIPKKARQS 
TVSDLVLYA ANGTAIQTY GYERLTITL GLRRRLIWN 
FIIVDTKRA IIGADLLHY FDLLIDIRR ARLIDSTTG 
ISSAGTCIS ASHAAVLSV SPNARYRDL IREFPALTT 
FHNVEPILP HATQHLIET TGPPVASKP RRLPLDKLQ 
IAKREFEHM MALGICRPS NSPWASPLH MVPKKDSNW 
RPVGDYRRL NAVTKEDRY PIPHLHDFA HLLAGNTIF 
STVDLVRAY HQIPVEASS IPKTAITTP FGLFEFTRM 
QFGLRNAAQ SFQRFIHEV LNGLHFCFP YLNDILIAS 
TSERERTDH LRKVFERLL KYGLTINPE KCSFGNSKV 
KFLGYEVSA DGTKPLTDR VKVI
      CDS sequence
      • >TC001386 RA
        atgcccgat aacccacca gatttcaac gccgctgtc 
caggtcgag agggttact gttaaaccg ccacccttt 
tggaaaggt gatcccaag ctgtggttt atccaactt 
gaagcccaa ttcaacctc ggcaagata acgagcgat 
acaactaag tatcactac gtggccagt gctatcgac 
acatcagtt cttcagcaa attgccgat ttcgtgacc 
aatcctccc gttgttaac caatatgaa ggtatcaaa 
caacggctt atttctaca ttttcggat tctcaggaa 
cgccaattg cgtaaacta ctgtcggaa atggactta 
ggcgacaag aaaccttcg caattgctt aacgaaatg 
aagcgtctg ggtgattcg gctgtatcc gacgaatta 
ctgaaaact ttgtggtta caaagattg ccgacccac 
gtccaatcc gtgctcgca accagctcc gacccgatt 
cagaacctt gcgcaaatg gcagacaaa atcgtggag 
atacaacac atgtcctca gtttgtaca gttgcgacc 
ccaaccgaa gatatgtct gcagctatc ctgcaactc 
actgaggaa gtcgcagca ttaaaggct gcctacaat 
actgaaatt aagccgcga cgatcacga tcaagacca 
cagacgcca gaccgttca agcagggac tcttgttgg 
taccaccga acatttggc aataaagca aagaagtgt 
atcactccc tgcaacttc aacaagtcg gaaaactct 
acgccgcgc catcgacgc ctcaccata accgatcca 
accaccggt atttcgttt ttgattgac tctggttcg 
gatatttca atcatcccc aagaaagca cgacagtca 
acagtaagt gacctcgta ctttacgcc gccaatggc 
accgccatt caaacctac ggttacgag agacttacc 
atcactttg ggattacga cgtagatta atttggaac 
ttcatcatc gttgatacc aaacgagca ataattggc 
gccgattta ttgcattat ttcgacctt ttaatcgat 
attagacgg gccagacta attgatagc acgacagga 
atctccagt gcaggcaca tgtatttcc gcctctcac 
gctgcagtg ctgtcagtt tcaccgaac gctcggtat 
cgcgacctg atcagggaa tttccagct ctgacaact 
tttcacaat gtcgagcca atccttcca catgcgacc 
cagcatcta atcgaaacc accggacct ccagtggct 
tcaaaacca cggagactc cctctagac aaactacaa 
atagccaaa agagaattc gaacatatg atggcgcta 
gggatttgc agaccctcc aatagtccc tgggcaagt 
cccctccat atggtccct aaaaaggac agcaactgg 
cgtccggta ggtgactat agacgactc aacgcggtc 
actaaagag gatcgttac ccaattcct catttacat 
gacttcgct cacctgctt gctggtaat accattttt 
tcaaccgtt gacctcgtt agagcttac caccagatc 
ccggtcgaa gcgagctct attccgaaa accgccatt 
accacacct tttggcctt ttcgaattt acaagaatg 
caatttggt cttcgtaac gccgctcaa tcctttcaa 
agattcatc cacgaagtc ttgaatggt ctccacttt 
tgcttcccc tacctgaat gacattctc atcgcctcc 
actagcgaa agggaacgc actgaccat cttcgcaaa 
gtctttgaa agattatta aagtacggc cttactatt 
aatcccgaa aaatgttct tttggaaat tccaaagtg 
aagttcctg gggtacgaa gtctcagca gatggcacc 
aagccctta accgaccga gtcaaggtc atttaa
      mRNA sequence
      • >TC001386 RA
        aacacgcgc atcgaaaac accacgcaa cagtgcacg 
ttacaacat gcccgataa cccaccaga tttcaacgc 
cgctgtcca ggtcgagag ggttactgt taaaccgcc 
acccttttg gaaaggtga tcccaagct gtggtttat 
ccaacttga agcccaatt caacctcgg caagataac 
gagcgatac aactaagta tcactacgt ggccagtgc 
tatcgacac atcagttct tcagcaaat tgccgattt 
cgtgaccaa tcctcccgt tgttaacca atatgaagg 
tatcaaaca acggcttat ttctacatt ttcggattc 
tcaggaacg ccaattgcg taaactact gtcggaaat 
ggacttagg cgacaagaa accttcgca attgcttaa 
cgaaatgaa gcgtctggg tgattcggc tgtatccga 
cgaattact gaaaacttt gtggttaca aagattgcc 
gacccacgt ccaatccgt gctcgcaac cagctccga 
cccgattca gaaccttgc gcaaatggc agacaaaat 
cgtggagat acaacacat gtcctcagt ttgtacagt 
tgcgacccc aaccgaaga tatgtctgc agctatcct 
gcaactcac tgaggaagt cgcagcatt aaaggctgc 
ctacaatac tgaaattaa gccgcgacg atcacgatc 
aagaccaca gacgccaga ccgttcaag cagggactc 
ttgttggta ccaccgaac atttggcaa taaagcaaa 
gaagtgtat cactccctg caacttcaa caagtcgga 
aaactctac gccgcgcca tcgacgcct caccataac 
cgatccaac caccggtat ttcgttttt gattgactc 
tggttcgga tatttcaat catccccaa gaaagcacg 
acagtcaac agtaagtga cctcgtact ttacgccgc 
caatggcac cgccattca aacctacgg ttacgagag 
acttaccat cactttggg attacgacg tagattaat 
ttggaactt catcatcgt tgataccaa acgagcaat 
aattggcgc cgatttatt gcattattt cgacctttt 
aatcgatat tagacgggc cagactaat tgatagcac 
gacaggaat ctccagtgc aggcacatg tatttccgc 
ctctcacgc tgcagtgct gtcagtttc accgaacgc 
tcggtatcg cgacctgat cagggaatt tccagctct 
gacaacttt tcacaatgt cgagccaat ccttccaca 
tgcgaccca gcatctaat cgaaaccac cggacctcc 
agtggcttc aaaaccacg gagactccc tctagacaa 
actacaaat agccaaaag agaattcga acatatgat 
ggcgctagg gatttgcag accctccaa tagtccctg 
ggcaagtcc cctccatat ggtccctaa aaaggacag 
caactggcg tccggtagg tgactatag acgactcaa 
cgcggtcac taaagagga tcgttaccc aattcctca 
tttacatga cttcgctca cctgcttgc tggtaatac 
cattttttc aaccgttga cctcgttag agcttacca 
ccagatccc ggtcgaagc gagctctat tccgaaaac 
cgccattac cacaccttt tggcctttt cgaatttac 
aagaatgca atttggtct tcgtaacgc cgctcaatc 
ctttcaaag attcatcca cgaagtctt gaatggtct 
ccacttttg cttccccta cctgaatga cattctcat 
cgcctccac tagcgaaag ggaacgcac tgaccatct 
tcgcaaagt ctttgaaag attattaaa gtacggcct 
tactattaa tcccgaaaa atgttcttt tggaaattc 
caaagtgaa gttcctggg gtacgaagt ctcagcaga 
tggcaccaa gcccttaac cgaccgagt caaggtcat 
ttaaactac ccgctacca aagacaccc aaagacgct 
agaaggttc ctaggtaca atttacttt taccgacgt 
tttgtacct catgcagcc gctcatcaa gccccgatc 
cacaatcta gtcaaaaac agcaaaaag aacgacaaa 
acaccgcta tcttggacc cccgaatcg aaagcagca 
ttcgagctg tgtaaaaca cgacctcgc tcaagcgat 
gctcttaat acaccctac agctactg

      If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
      Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY